Human Gene NCAM2 (uc002yld.2) Description and Page Index
  Description: Homo sapiens neural cell adhesion molecule 2 (NCAM2), mRNA.
RefSeq Summary (NM_004540): The protein encoded by this gene belongs to the immunoglobulin superfamily. It is a type I membrane protein and may function in selective fasciculation and zone-to-zone projection of the primary olfactory axons. [provided by RefSeq, Jul 2008]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: SRR1803611.145816.1, SRR1660807.53755.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1968540, SAMEA1968968 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000400546.6/ ENSP00000383392.1 RefSeq Select criteria :: based on conservation, expression ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr21:22,370,633-22,912,517 Size: 541,885 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr21:22,370,882-22,910,278 Size: 539,397 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr21:22,370,633-22,912,517)mRNA (may differ from genome)Protein (837 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: NCAM2_HUMAN
DESCRIPTION: RecName: Full=Neural cell adhesion molecule 2; Short=N-CAM-2; Short=NCAM-2; Flags: Precursor;
FUNCTION: May play important roles in selective fasciculation and zone-to-zone projection of the primary olfactory axons.
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Expressed most strongly in adult and fetal brain.
SIMILARITY: Contains 2 fibronectin type-III domains.
SIMILARITY: Contains 5 Ig-like C2-type (immunoglobulin-like) domains.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): NCAM2
CDC HuGE Published Literature: NCAM2
Positive Disease Associations: Alcoholism , Amyotrophic Lateral Sclerosis , Erythrocyte Count , Glucose , Hemoglobins , Hypertrophy, Left Ventricular , Lipids , Longevity , Macular Degeneration , Metabolism , Obesity , Triglycerides
Related Studies:
  1. Alcoholism
    , , . [PubMed 0]
  2. Alcoholism
    , , . [PubMed 0]
  3. Alcoholism
    , , . [PubMed 0]
           more ... click here to view the complete list

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 10.18 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 104.25 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -133.33249-0.535 Picture PostScript Text
3' UTR -540.972239-0.242 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003961 - Fibronectin_type3
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR013098 - Ig_I-set
IPR003598 - Ig_sub2
IPR009138 - Neural_cell_adh

Pfam Domains:
PF00041 - Fibronectin type III domain
PF00047 - Immunoglobulin domain
PF07679 - Immunoglobulin I-set domain
PF07686 - Immunoglobulin V-set domain
PF13895 - Immunoglobulin domain
PF13927 - Immunoglobulin domain

SCOP Domains:
48726 - Immunoglobulin
49265 - Fibronectin type III

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2DOC
- NMR MuPIT

2JLL
- X-ray MuPIT

2KBG
- NMR MuPIT
To conserve bandwidth, only the images from the first 3 structures are shown.
2V5T - X-ray MuPIT 2VAJ - X-ray MuPIT 2WIM - X-ray MuPIT
2XY1 - X-ray MuPIT 2XY2 - X-ray MuPIT 2XYC - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O15394
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0042802 identical protein binding

Biological Process:
GO:0007155 cell adhesion
GO:0007158 neuron cell-cell adhesion
GO:0007413 axonal fasciculation
GO:0007608 sensory perception of smell

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016604 nuclear body
GO:0030424 axon


-  Descriptions from all associated GenBank mRNAs
  BC052946 - Homo sapiens neural cell adhesion molecule 2, mRNA (cDNA clone MGC:51008 IMAGE:5315109), complete cds.
AK299054 - Homo sapiens cDNA FLJ54289 complete cds, highly similar to Neural cell adhesion molecule 2 precursor.
BC036088 - Homo sapiens cDNA clone IMAGE:5274717, containing frame-shift errors.
U75330 - Human neural cell adhesion protein (NCAM21) mRNA, complete cds.
AK302870 - Homo sapiens cDNA FLJ53114 complete cds, highly similar to Neural cell adhesion molecule 2 precursor.
JD200362 - Sequence 181386 from Patent EP1572962.
JD272545 - Sequence 253569 from Patent EP1572962.
JD458584 - Sequence 439608 from Patent EP1572962.
JD247182 - Sequence 228206 from Patent EP1572962.
JD173291 - Sequence 154315 from Patent EP1572962.
JD326675 - Sequence 307699 from Patent EP1572962.
JD287070 - Sequence 268094 from Patent EP1572962.
JD428870 - Sequence 409894 from Patent EP1572962.
JD091954 - Sequence 72978 from Patent EP1572962.
JD042834 - Sequence 23858 from Patent EP1572962.
JD043429 - Sequence 24453 from Patent EP1572962.
JD237898 - Sequence 218922 from Patent EP1572962.
JD510012 - Sequence 491036 from Patent EP1572962.
JD090710 - Sequence 71734 from Patent EP1572962.
JD429010 - Sequence 410034 from Patent EP1572962.
JD310690 - Sequence 291714 from Patent EP1572962.
JD102500 - Sequence 83524 from Patent EP1572962.
JD315721 - Sequence 296745 from Patent EP1572962.
JD314891 - Sequence 295915 from Patent EP1572962.
JD084444 - Sequence 65468 from Patent EP1572962.
JD504965 - Sequence 485989 from Patent EP1572962.
JD521725 - Sequence 502749 from Patent EP1572962.
JD459457 - Sequence 440481 from Patent EP1572962.
JD309784 - Sequence 290808 from Patent EP1572962.
JD041793 - Sequence 22817 from Patent EP1572962.
AL137344 - Homo sapiens mRNA; cDNA DKFZp761I1311 (from clone DKFZp761I1311).

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04514 - Cell adhesion molecules (CAMs)
hsa05020 - Prion diseases

-  Other Names for This Gene
  Alternate Gene Symbols: A8MQ06, NCAM21, NCAM2_HUMAN, NM_004540, NP_004531, O15394, Q7Z7F2
UCSC ID: uc002yld.2
RefSeq Accession: NM_004540
Protein: O15394 (aka NCAM2_HUMAN or NCM2_HUMAN)
CCDS: CCDS42910.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_004540.3
exon count: 18CDS single in 3' UTR: no RNA size: 5006
ORF size: 2514CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5228.00frame shift in genome: no % Coverage: 99.92
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.